7XGZ

Cryo-EM structure of the T=4 lake sinai virus 2 virus-like capsid at pH 7.5

PDB DOI: https://doi.org/10.2210/pdb7XGZ/pdb
EM Map EMD-33190: EMDB EMDataResource

Classification: VIRUS LIKE PARTICLE
Organism(s): Lake Sinai virus 2
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-04-07 Released: 2023-02-08
Deposition Author(s): Chen, N.C., Wang, C.H., Chen, C.J., Yoshimura, M., Guan, H.H., Chuankhayan, P., Lin, C.C.
Funding Organization(s): Ministry of Science and Technology (MoST, Taiwan)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structures of honeybee-infecting Lake Sinai virus reveal domain functions and capsid assembly with dynamic motions

Chen, N.C., Wang, C.H., Yoshimura, M., Yeh, Y.Q., Guan, H.H., Chuankhayan, P., Lin, C.C., Lin, P.J., Huang, Y.C., Wakatsuki, S., Ho, M.C., Chen, C.J.

(2023) Nat Commun 14: 545

DOI: https://doi.org/10.1038/s41467-023-36235-3

Macromolecule Content

Total Structure Weight: 229.38 kDa
Atom Count: 13,856
Modelled Residue Count: 1,792
Deposited Residue Count: 2,080
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein alpha	A, B, C, D	520	Lake Sinai virus 2	Mutation(s): 0
UniProt
Find proteins for F8TEV4 (Lake Sinai virus 2) Explore F8TEV4 Go to UniProtKB: F8TEV4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	F8TEV4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-02-08

Deposition Author(s):

Chuankhayan, P.

Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, Taiwan)	Taiwan	--

Revision History (Full details and data files)

Version 1.0: 2023-02-08
Type: Initial release
Version 1.1: 2023-02-15
Changes: Database references

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.